Evidence map›Paper›PMID 41030980›Full record

ArticlebioRxiv : the preprint server for biology2024

Characterization of bacterial intrinsic transcription terminators identified with TERMITe - a novel method for comprehensive analysis of Term-seq data.

Jan Grzegorz Kosiński, Sandeepani Ranaweera, Agnieszka Chełkowska-Pauszek, Mikhail Kashlev, Paul Babitzke, Marek Żywicki

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors.

Jan Grzegorz KosińskiDepartment of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland.ORCID 0000-0002-6806-0013
Sandeepani RanaweeraDepartment of Biochemistry and Molecular Biology, Center for RNA Molecular Biology, Pennsylvania State University, University Park, Pennsylvania, United States.ORCID 0009-0004-4357-0748
Agnieszka Chełkowska-PauszekDepartment of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland.ORCID 0000-0002-4674-3673
Mikhail KashlevRNA Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, Maryland, United States.ORCID 0000-0002-1260-6486
Paul BabitzkeDepartment of Biochemistry and Molecular Biology, Center for RNA Molecular Biology, Pennsylvania State University, University Park, Pennsylvania, United States.ORCID 0000-0003-2481-1062
Marek ŻywickiDepartment of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland.ORCID 0000-0003-4774-2258

Funding

Regulation of transcription elongationR01GM098399 · NIGMS · PENNSYLVANIA STATE UNIVERSITY, THE · PI BABITZKE, PAUL L · 2012 to 2024
$3.6M
NIGMS NIH HHS R01 GM098399
6 · The paper itself

Abstract

In recent years, Term-seq became a standard experimental approach for high-throughput identification of 3' ends of bacterial transcripts. It was widely adopted to study transcription termination events and 3' maturation of bacterial RNAs. Despite widespread utilization, a universal bioinformatics toolkit for comprehensive analysis of Term-seq sequencing data is still lacking. Here, we describe

Identifiers

PMID41030980
PMCPMC12478363

What OpenQuestion holds

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LicenceCC BY-NC-ND
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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.